Abstract

Coxsackieviruses are non-enveloped viruses with linear single-stranded RNA. Group Bcoxsackieviruses were noted to cause a spastic paralysis due to focal muscle injury and degeneration ofneuronal tissue. Peptide fragments of Coxsackievirus-B coat protein can be used to select nonamers for use inrational vaccine design and to increase the understanding of roles of the immune system in infectious diseases.Analysis shows MHC class II binding peptides of coat protein from Coxsackievirus-B are important determinantfor protection of host form viral infection. In this assay we predicted the binding affinity of coat protein having 281amino acids, which shows 273 nonamers. These peptides are from a set of aligned peptides known to bind to agiven MHC molecule as the predictor of MHC-peptide binding. MHCII molecules bind peptides in similar yetdifferent modes and alignments of MHCII-ligands were obtained to be consistent with the binding mode of thepeptides to their MHC class, this means the increase in affinity of MHC binding peptides may result inenhancement of immunogenicity of coat protein nonamers. Binding ability prediction of antigen peptides to majorhistocompatibility complex (MHC) class I & II molecules is important in vaccine development fromCoxsackievirus.

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